ArticleScientific reports2017
Lineage structure of Streptococcus pneumoniae may be driven by immune selection on the groEL heat-shock protein.
Article in Scientific reports, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 16 papers.
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Who cites it
16 citing papers in PubMed, 22 citations in OpenAlex.
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- Pneumococcal population genomics changes during the early time period of conjugate vaccine uptake in southern India.Microbial genomics · 2024Article
- Polymorphisms predicting phylogeny in hepatitis B virus.Virus evolution · 2023Article
- Pneumococcal Competition Modulates Antibiotic Resistance in the Pre-Vaccination Era: A Modelling Study.Vaccines · 2021Article
- Frequency-dependent selection can forecast evolution in Streptococcus pneumoniae.PLoS biology · 2020Article
- Hospital discharges in urban sanitation systems: Long-term monitoring of wastewater resistome and microbiota in relationship to their eco-exposome.Water research X · 2020Article
- Joint sequencing of human and pathogen genomes reveals the genetics of pneumococcal meningitis.Nature communications · 2019Article
- Identifying genes associated with invasive disease in S. pneumoniae by applying a machine learning approach to whole genome sequence typing data.Scientific reports · 2019Article
- Reverse immunodynamics: a new method for identifying targets of protective immunity.Scientific reports · 2019Article
- Quantification of Human Oral and FecalFrontiers in microbiology · 2019Article
- The impact of serotype-specific vaccination on phylodynamic parameters of Streptococcus pneumoniae and the pneumococcal pan-genome.PLoS pathogens · 2018Observational
- Vaccination can drive an increase in frequencies of antibiotic resistance among nonvaccine serotypes ofProceedings of the National Academy of Sciences of the United States of America · 2018Article
- Puzzling Over the Pneumococcal Pangenome.Frontiers in microbiology · 2018Review
- Open-access bacterial population genomics: BIGSdb software, the PubMLST.org website and their applications.Wellcome open research · 2018Article
- Competing species leave many potential niches unfilled.Nature ecology & evolution · 2017Article
Corrections and comments
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Authors and funding
7 authors at 2 institutions in 1 country.
Funding
Abstract
Populations of Streptococcus pneumoniae (SP) are typically structured into groups of closely related organisms or lineages, but it is not clear whether they are maintained by selection or neutral processes. Here, we attempt to address this question by applying a machine learning technique to SP whole genomes. Our results indicate that lineages evolved through immune selection on the groEL chaperone protein. The groEL protein is part of the groESL operon and enables a large range of proteins to fold correctly within the physical environment of the nasopharynx, thereby explaining why lineage structure is so stable within SP despite high levels of genetic transfer. SP is also antigenically diverse, exhibiting a variety of distinct capsular serotypes. Associations exist between lineage and capsular serotype but these can be easily perturbed, such as by vaccination. Overall, our analyses indicate that the evolution of SP can be conceptualized as the rearrangement of modular functional units occurring on several different timescales under different pressures: some patterns have locked in early (such as the epistatic interactions between groESL and a constellation of other genes) and preserve the differentiation of lineages, while others (such as the associations between capsular serotype and lineage) remain in continuous flux.
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